Insect phylogenomics: exploring the source of incongruence using new transcriptomic data (Q30578291)

4 November 2017

Insect phylogenomics: exploring the source of incongruence using new transcriptomic data (English)

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4 November 2017

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Sabrina Simon

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4 November 2017

Apurva Narechania

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2

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4 November 2017

Rob Desalle

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3

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4 November 2017

Heike Hadrys

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4

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4 November 2017

language of work or name

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1 January 2012

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Genome Biology and Evolution

4 November 2017

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4 November 2017

4

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4 November 2017

12

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4 November 2017

1295-1309

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Genomic and morphological evidence converge to resolve the enigma of Strepsiptera

4 November 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Isolation of Hox cluster genes from insects reveals an accelerated sequence evolution rate

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Advances in insect phylogeny at the dawn of the postgenomic era.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Random Addition Concatenation Analysis: a novel approach to the exploration of phylogenomic signal reveals strong agreement between core and shell genomic partitions in the cyanobacteria

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Pancrustacean phylogeny in the light of new phylogenomic data: support for Remipedia as the possible sister group of Hexapoda

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

What is the phylogenetic signal limit from mitogenomes? The reconciliation between mitochondrial and nuclear data in the Insecta class phylogeny

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Resolving difficult phylogenetic questions: why more sequences are not enough

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Phylogenetic relationships among insect orders based on three nuclear protein-coding gene sequences

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

9-genes reinforce the phylogeny of holometabola and yield alternate views on the phylogenetic placement of Strepsiptera

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Expressed sequence tags reveal Proctotrupomorpha (minus Chalcidoidea) as sister to Aculeata (Hymenoptera: Insecta).

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

A phylogenomic approach to resolve the arthropod tree of life

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

The effect of ambiguous data on phylogenetic estimates obtained by maximum likelihood and Bayesian inference

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

A Monte Carlo approach successfully identifies randomness in multiple sequence alignments: a more objective means of data exclusion

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

FASconCAT: Convenient handling of data matrices

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Ribosomal protein genes of holometabolan insects reject the Halteria, instead revealing a close affinity of Strepsiptera with Coleoptera

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Arthropod relationships revealed by phylogenomic analysis of nuclear protein-coding sequences

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

The complete mitochondrial genome of the cockroach Eupolyphaga sinensis (Blattaria: Polyphagidae) and the phylogenetic relationships within the Dictyoptera

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

The mitochondrial genome of the 'twisted-wing parasite' Mengenilla australiensis (Insecta, Strepsiptera): a comparative study

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

OrthoSelect: a protocol for selecting orthologous groups in phylogenomics

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

HaMStR: profile hidden markov model based search for orthologs in ESTs

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Single-copy nuclear genes resolve the phylogeny of the holometabolous insects

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Can comprehensive background knowledge be incorporated into substitution models to improve phylogenetic analyses? A case study on major arthropod relationships

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Resolving arthropod phylogeny: exploring phylogenetic signal within 41 kb of protein-coding nuclear gene sequence

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Recent developments in the MAFFT multiple sequence alignment program

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Using ESTs for phylogenomics: can one accurately infer a phylogenetic tree from a gappy alignment?

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Broad phylogenomic sampling improves resolution of the animal tree of life

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Acoel flatworms are not platyhelminthes: evidence from phylogenomics

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Death of an order: a comprehensive molecular phylogenetic study confirms that termites are eusocial cockroaches

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Inconsistency of phylogenetic estimates from concatenated data under coalescence

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Phylogenomic analysis reveals bees and wasps (Hymenoptera) at the base of the radiation of Holometabolous insects

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

The supermatrix approach to systematics

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Discordance of species trees with their most likely gene trees.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Dense taxonomic EST sampling and its applications for molecular systematics of the Coleoptera (beetles).

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Phylogenomics of eukaryotes: impact of missing data on large alignments

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

The COG database: an updated version includes eukaryotes

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Missing data, incomplete taxa, and phylogenetic accuracy

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Is sparse taxon sampling a problem for phylogenetic inference?

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Loss and recovery of wings in stick insects

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

The Strepsiptera problem: phylogeny of the holometabolous insect orders inferred from 18S and 28S ribosomal DNA sequences and morphology

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Mantophasmatodea: a new insect order with extant members in the Afrotropics

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3542558

Lack of resolution in the animal phylogeny: closely spaced cladogeneses or undetected systematic errors?

14 July 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

Endopterygote systematics - where do we stand and what is the goal (Hexapoda, Arthropoda)?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

Cephalic anatomy of Zorotypus hubbardi (Hexapoda: Zoraptera): new evidence for a relationship with Acercaria

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

An empirical assessment of long-branch attraction artefacts in deep eukaryotic phylogenomics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

Phylogeny of earwigs (Insecta: Dermaptera) based on molecular and morphological evidence: reconsidering the classification of Dermaptera

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

Aligned 18S and insect phylogeny.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

Phylogeny of Insect Orders

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

Insect phylogenomics: results, problems and the impact of matrix composition.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

Towards an 18S phylogeny of hexapods: accounting for group-specific character covariance in optimized mixed nucleotide/doublet models.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

A New Species of Zorotypus from Central Amazonia, Brazil (Zoraptera: Zorotypidae)

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

On the value of Elongation factor-1alpha for reconstructing pterygote insect phylogeny.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

A phylogenomic approach to resolve the basal pterygote divergence

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

The Phylogeny of the Extant Hexapod Orders

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

A view from the edge of the forest: recent progress in understanding the relationships of the insect orders

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

The Zoraptera problem: evidence for Zoraptera + Embiodea from the wing base

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

Aligned 18S for Zoraptera (Insecta): phylogenetic position and molecular evolution.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

Monophyletic Polyneoptera recovered by wing base structure

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

Quantification of insect genome divergence

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

The Plecoptera – who are they? The problematic placement of stoneflies in the phylogenetic system of insects

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVS104

Phylogenetic comparison of local length plasticity of the small subunit of nuclear rDNAs among all Hexapoda orders and the impact of hyper-length-variation on alignment

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23175716

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/GBE/EVS104

1 reference

4 November 2017

1 reference

4 November 2017

1 reference